a44421a79fb36cc2036fe116b97ea3bc9590cd0c
braney
  Fri Dec 2 09:34:39 2011 -0800
removed rcsid (#295)
diff --git src/hg/lib/sangerGene.c src/hg/lib/sangerGene.c
index ab63a19..3988413 100644
--- src/hg/lib/sangerGene.c
+++ src/hg/lib/sangerGene.c
@@ -1,189 +1,188 @@
 /* sangerGene.c was originally generated by the autoSql program, which also 
  * generated sangerGene.h and sangerGene.sql.  This module links the database and
  * the RAM representation of objects. */
 
 #include "common.h"
 #include "linefile.h"
 #include "dystring.h"
 #include "jksql.h"
 #include "sangerGene.h"
 
-static char const rcsid[] = "$Id: sangerGene.c,v 1.2 2005/04/13 06:25:56 markd Exp $";
 
 struct sangerGene *sangerGeneLoad(char **row)
 /* Load a sangerGene from row fetched with select * from sangerGene
  * from database.  Dispose of this with sangerGeneFree(). */
 {
 struct sangerGene *ret;
 int sizeOne;
 
 AllocVar(ret);
 ret->exonCount = sqlUnsigned(row[7]);
 ret->name = cloneString(row[0]);
 ret->chrom = cloneString(row[1]);
 strcpy(ret->strand, row[2]);
 ret->txStart = sqlUnsigned(row[3]);
 ret->txEnd = sqlUnsigned(row[4]);
 ret->cdsStart = sqlUnsigned(row[5]);
 ret->cdsEnd = sqlUnsigned(row[6]);
 sqlUnsignedDynamicArray(row[8], &ret->exonStarts, &sizeOne);
 assert(sizeOne == ret->exonCount);
 sqlUnsignedDynamicArray(row[9], &ret->exonEnds, &sizeOne);
 assert(sizeOne == ret->exonCount);
 ret->proteinID = cloneString(row[10]);
 return ret;
 }
 
 struct sangerGene *sangerGeneLoadAll(char *fileName) 
 /* Load all sangerGene from a whitespace-separated file.
  * Dispose of this with sangerGeneFreeList(). */
 {
 struct sangerGene *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[11];
 
 while (lineFileRow(lf, row))
     {
     el = sangerGeneLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct sangerGene *sangerGeneLoadAllByChar(char *fileName, char chopper) 
 /* Load all sangerGene from a chopper separated file.
  * Dispose of this with sangerGeneFreeList(). */
 {
 struct sangerGene *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[11];
 
 while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
     {
     el = sangerGeneLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct sangerGene *sangerGeneCommaIn(char **pS, struct sangerGene *ret)
 /* Create a sangerGene out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new sangerGene */
 {
 char *s = *pS;
 int i;
 
 if (ret == NULL)
     AllocVar(ret);
 ret->name = sqlStringComma(&s);
 ret->chrom = sqlStringComma(&s);
 sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand));
 ret->txStart = sqlUnsignedComma(&s);
 ret->txEnd = sqlUnsignedComma(&s);
 ret->cdsStart = sqlUnsignedComma(&s);
 ret->cdsEnd = sqlUnsignedComma(&s);
 ret->exonCount = sqlUnsignedComma(&s);
 s = sqlEatChar(s, '{');
 AllocArray(ret->exonStarts, ret->exonCount);
 for (i=0; i<ret->exonCount; ++i)
     {
     ret->exonStarts[i] = sqlUnsignedComma(&s);
     }
 s = sqlEatChar(s, '}');
 s = sqlEatChar(s, ',');
 s = sqlEatChar(s, '{');
 AllocArray(ret->exonEnds, ret->exonCount);
 for (i=0; i<ret->exonCount; ++i)
     {
     ret->exonEnds[i] = sqlUnsignedComma(&s);
     }
 s = sqlEatChar(s, '}');
 s = sqlEatChar(s, ',');
 ret->proteinID = sqlStringComma(&s);
 *pS = s;
 return ret;
 }
 
 void sangerGeneFree(struct sangerGene **pEl)
 /* Free a single dynamically allocated sangerGene such as created
  * with sangerGeneLoad(). */
 {
 struct sangerGene *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->name);
 freeMem(el->chrom);
 freeMem(el->exonStarts);
 freeMem(el->exonEnds);
 freeMem(el->proteinID);
 freez(pEl);
 }
 
 void sangerGeneFreeList(struct sangerGene **pList)
 /* Free a list of dynamically allocated sangerGene's */
 {
 struct sangerGene *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     sangerGeneFree(&el);
     }
 *pList = NULL;
 }
 
 void sangerGeneOutput(struct sangerGene *el, FILE *f, char sep, char lastSep) 
 /* Print out sangerGene.  Separate fields with sep. Follow last field with lastSep. */
 {
 int i;
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->name);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->chrom);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->strand);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->txStart);
 fputc(sep,f);
 fprintf(f, "%u", el->txEnd);
 fputc(sep,f);
 fprintf(f, "%u", el->cdsStart);
 fputc(sep,f);
 fprintf(f, "%u", el->cdsEnd);
 fputc(sep,f);
 fprintf(f, "%u", el->exonCount);
 fputc(sep,f);
 if (sep == ',') fputc('{',f);
 for (i=0; i<el->exonCount; ++i)
     {
     fprintf(f, "%u", el->exonStarts[i]);
     fputc(',', f);
     }
 if (sep == ',') fputc('}',f);
 fputc(sep,f);
 if (sep == ',') fputc('{',f);
 for (i=0; i<el->exonCount; ++i)
     {
     fprintf(f, "%u", el->exonEnds[i]);
     fputc(',', f);
     }
 if (sep == ',') fputc('}',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->proteinID);
 if (sep == ',') fputc('"',f);
 fputc(lastSep,f);
 }
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */